Full information on isolate M726-6 (id:1330)
Provenance/primary metadata
- id
- 1330
- isolate
- M726-6
- alias
- M726-6
- biosample
- SAMN06212383
- accession number
- GCF_001981455.1
- clade
- P1
- species
- santarosai
- serogroup
- Grippotyphosa
- serovar
- Grippotyphosa
- isolation year
- 2006
- sequencing year
- 2017
- world region
- South America
- country
- Brazil
- city
- Rio De Janero
- host
- goat
- sample type
- Urine
- source lab
- GenBank
- sender
- Vallier SORDOILLET, CNR Leptospirose PASTEUR
- curator
- Jean-François Mariet, Institut Pasteur, Paris (E-mail: jean-francois.mariet@pasteur.fr)
- update history
- 10 updates show details
- date entered
- 2022-10-12
- datestamp
- 2024-04-25
Sequence bin
- contigs
- 60
- total length
- 4,098,927 bp
- max length
- 628,091 bp
- mean length
- 68,316 bp
- N50
- 199,811
- L50
- 7
- N90
- 50,218
- L90
- 25
- N95
- 23,006
- L95
- 32
- %GC
- 41.80
- Ns
- 5
- gaps
- 5
- loci tagged
- 600
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | ||
| %GC |
Annotation quality metrics
Scheme completion
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| cgMLST | 545 | 540 | 99 | |
Similar isolates (determined by classification schemes)
Some groups only contain this isolate. Show single groups
Experimental schemes are subject to change and are not a stable part of the nomenclature.
| Classification scheme | Underlying scheme | Clustering method | Mismatch threshold | Status | Group |
|---|---|---|---|---|---|
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 107 (2 isolates) |
| Cluster_40_cgMLST | cgMLST | Single-linkage | 40 | experimental | 416 (1 isolate) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 406 (1 isolate) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 427 (1 isolate) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 403 (1 isolate) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 107 (2 isolates) |
Schemes and loci
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